34e88bf1c3019430e35b66c069e2063d *DESCRIPTION
0c20df7b66f52ab286841fed121eecad *INDEX
47fb13e79a24a32dcafa6313308b3b6a *Meta/Rd.rds
4b7814f9ba349b2037879b960f6fd287 *Meta/data.rds
c8440c06be5e093e05779d74c0ffa6b7 *Meta/features.rds
496bdb43f091e1c52aec380d4e1ff1de *Meta/hsearch.rds
cfda3147403345c17e06ca99eca5a175 *Meta/links.rds
edd8ad3c6efd647385a1339a7cfe06f0 *Meta/nsInfo.rds
fc6e6cf410736134c2bb5742cf954824 *Meta/package.rds
c32ff2579cc8d1d7bf965fc716b801e1 *Meta/vignette.rds
5ff27e932a4ff8e5e0654455f74914e5 *NAMESPACE
94868a69c1e6e718d7b4d7995ef91156 *NEWS.md
d6c68f1fe41ced6e98a766a3757313da *R/musicatk
c958574dbf540c261b394a2a9ae14d3d *R/musicatk.rdb
5f5e29892e89b0f78f90bd98195695f2 *R/musicatk.rdx
f73fe2f54bc8ece2db89a53221ce83ef *data/Rdata.rdb
16c60d13b01c5595242206cdd773d163 *data/Rdata.rds
7ff203b566a9a488a1142b91df84571a *data/Rdata.rdx
9946e7b5ba3cadf46b76468c2f926ed1 *doc/index.html
f04d0a22211bb1db31f001943201ce1e *doc/musicatk.R
c9dd2afd920e6bd27bb707530d11921a *doc/musicatk.Rmd
20c4ffbf9988e334fb20dfa29838e4c6 *doc/musicatk.html
e651b9f791d0c38f2bd45aca9864cef9 *extdata/public_LUAD_TCGA-97-7938.vcf
15c6b74e55900b3c276db4cc3885f77f *extdata/public_SKCM_TCGA-EE-A3J5-06A-11D-A20D-08.vcf
3ea253273b24dd59a3016baee77ef91a *extdata/public_SKCM_TCGA-ER-A197-06A-32D-A197-08.vcf
a6d9fec3bbf4ff3b47a76eb83ad724ed *extdata/public_SKCM_TCGA-ER-A19O-06A-11D-A197-08.vcf
37706ffefe7ff446358829c5d04a4ae4 *extdata/public_TCGA.LUSC.maf
271456a707445309282c1460f964dd31 *extdata/sample_annotations.txt
e2da7e4d1563b409477d33de0850257c *help/AnIndex
6bca2b21bc6d7b964d4cc7bff5a85c68 *help/add_flank_to_variants.html
d297cff26f560d3337515895a333f167 *help/add_variant_type.html
ad126431f93f6644f5a5e6e2055c4211 *help/aliases.rds
5b73776b6720036eca3a7fe3eb4c797e *help/annotate_replication_strand.html
2c6d128a2b0293749364d4924a12a622 *help/annotate_transcript_strand.html
da465d248d101140595f9e5f51b3c6e1 *help/annotate_variant_length.html
d327f58bfcf3b6ed478b2665a1a61466 *help/annotate_variant_type.html
9b53973b42aba1049f75c79726b503ca *help/auto_predict_grid.html
1be46a08921bbf6aecd0ef49e8cb5a16 *help/auto_subset_sigs.html
c628b6fa5348b9ff0695f5d7c50c750f *help/build_custom_table.html
35a827b31ece966fc4c3f76558862ad3 *help/build_standard_table.html
10c373d768561ee63a1c1b095aceab1d *help/built_tables,musica-method.html
10c373d768561ee63a1c1b095aceab1d *help/built_tables,musica_result-method.html
10c373d768561ee63a1c1b095aceab1d *help/built_tables.html
7679bef2af52405b0f460277b3049722 *help/cluster_exposure.html
d58f98a4077b9d76290b029fe15de6de *help/combine_count_tables.html
4ebd489e81b6c6c343f7a82ef1e9c2cb *help/combine_predict_grid.html
aec5019234456d10b6a7b129d894c69c *help/compare_cosmic_v2.html
a20174b8dd9daa5b908fd156a0a1637a *help/compare_cosmic_v3.html
1a004b5a64bda83012223331358707b0 *help/compare_results.html
db35766acecb593bff018f1dafba4e7f *help/cosmic_v2_sigs.html
499af42957ca2b41f254a4027ea44d76 *help/cosmic_v2_subtype_map.html
94602e033aafed3d34786d52c17eb3cd *help/cosmic_v3_dbs_sigs.html
59d7a507262ce84b572b0ff2d76a4929 *help/cosmic_v3_indel_sigs.html
d2f6c0b2299ecf6abaea7c4f81163fdb *help/cosmic_v3_sbs_sigs.html
43b157c45ef2648783b0c8427967df04 *help/cosmic_v3_sbs_sigs_exome.html
2ee5d57c3cfa82f4d2b94deb6d5b66a7 *help/count_table-class.html
3d7aaaa363bdf5d2239882edd1aef4fe *help/create_dbs78_table.html
aa5e4a1e8e2c4bbd707e04b9d0e91631 *help/create_musica.html
e344ad360f34b84b8f5de766e07dba8a *help/create_sbs192_table.html
d0fbdec2390969d808120c809b29fb7f *help/create_sbs96_table.html
eb80fb1123f45da7f47bcee0e5dde84e *help/create_umap.html
25ee43920189830ce497de0977fac512 *help/dbs_musica.html
77bcb631f30f1bcfff2a4f579f20a76a *help/discover_signatures.html
8a2a00a5d7e1c2bf2226738750e0284c *help/dot-jsd.html
d7eb28681ba886db12d1b5767265141b *help/drop_annotation.html
45c571c82f2c22b09fd736790cabae31 *help/exposure_differential_analysis.html
d7f4ceee00247f914001b3312381e41c *help/exposures,musica_result-method.html
d7f4ceee00247f914001b3312381e41c *help/exposures.html
f951ac271c071bebcdcb9dd576b5ad54 *help/extract_count_tables.html
0f44dcf81b0ba17190d67c16680dbe1e *help/extract_variants.html
9fc4582d0f315ce01f5d08d36edebec6 *help/extract_variants_from_maf.html
b00eb8b9ce43b63a2f63b17f2b1d7ddf *help/extract_variants_from_maf_file.html
dd0eddd0f0185626a24bd3c36fb52921 *help/extract_variants_from_matrix.html
a480edcde2be329acf865bfa97beb57b *help/extract_variants_from_vcf.html
85a17e8d40575977b8c4ac93a5b830c0 *help/extract_variants_from_vcf_file.html
9d087f4630424bfe3c7b2580077dae11 *help/generate_result_grid.html
850aacb9bbbef557cdcf85596aac359f *help/get_musica,musica_result-method.html
850aacb9bbbef557cdcf85596aac359f *help/get_musica.html
06fac0a0cbadbc25dd0231c6364838b2 *help/indel_musica.html
021f263a6b494a44007a8882e8e6333f *help/k_select.html
c50463a9eb7828988c744854c3acc4d1 *help/musica-class.html
433f66cdcc73a51b6dc77825f7d34362 *help/musica.html
d18df90f4f8ad92df59fb7c83bc195a7 *help/musica_annot.html
e5d5b07f7aa364ba1344045d7f8f4dad *help/musica_result-class.html
4ae38c88a5b5142d68bd496c307a3dbc *help/musica_result_grid-class.html
fa4809a053ea36124bba20319dc673cf *help/musica_sbs96.html
22f999945c536a30b89195959836f491 *help/musica_sbs96_tiny.html
0a4a24783d2e2b2d1c0a51123bff6707 *help/musicatk.rdb
30cba60f76e3573a83c57763ec97c5f2 *help/musicatk.rdx
02f08e9ab6b2a85ec0651a2e27e63435 *help/name_signatures.html
546feb5d141e804402295cec819da0dd *help/paths.rds
3103e0d76b0f117568bc894a412c48dd *help/pipe.html
eb56461e5d5ebbe56905b26d420ae37e *help/plot_cluster.html
c1a8fd1652ee0f3e3aabc599c3798f34 *help/plot_differential_analysis.html
9e321f8344d24157787007d379881ae9 *help/plot_exposures.html
5c7173cde0410b00b88b8c69231764ed *help/plot_heatmap.html
3b63bcd89b95cfc9162cace4c097fec1 *help/plot_sample_counts.html
ddd25867f0578f9ba23f4ac6c72cff3b *help/plot_sample_reconstruction_error.html
851a457439e3c26c5e97b7f6858a3c64 *help/plot_signatures.html
1508f68085db51860b02bfc25911d9ca *help/plot_umap.html
0382a0f51e9639f4c68b4b14c72013bc *help/predict_exposure.html
2241c4d13fdf318ffacaa921367f39ae *help/rc.html
66b09b524ba83bd02bbff1f23bd65f0f *help/rep_range.html
38fe9060ae3a6a171e09d3a3d4334fbc *help/res.html
b75e17b6ffc1a1b3ebdb70145b81c0f7 *help/res_annot.html
e614904973947f92c2d2a422722659ae *help/samp_annot,musica-method.html
e614904973947f92c2d2a422722659ae *help/samp_annot,musica_result-method.html
e614904973947f92c2d2a422722659ae *help/samp_annot.html
301bbd4859f6202bc738520eeef1beb6 *help/sample_names,musica-method.html
301bbd4859f6202bc738520eeef1beb6 *help/sample_names,musica_result-method.html
301bbd4859f6202bc738520eeef1beb6 *help/sample_names.html
8c186a5a1b5809874e063f1d2ec5033c *help/select_genome.html
5571793ae81c85d38f0cf76c7653a5fc *help/signatures,musica_result-method.html
5571793ae81c85d38f0cf76c7653a5fc *help/signatures.html
0c46700a62296e818c61a1af7678e598 *help/subset_musica_by_annotation.html
5c224eec00b4b629c15785030b445f0b *help/subset_musica_by_counts.html
7b11803d2e13f04df0c45ff2fc29bd8e *help/subset_variant_by_type.html
b9c30a7f4c970b744d54e5ba2c378425 *help/subset_variants_by_samples.html
a8e988b55f11f3d93f4d5050b583d886 *help/table_96.html
64a552bbc8a743fe456979f842d4d6f5 *help/table_selected,musica_result-method.html
64a552bbc8a743fe456979f842d4d6f5 *help/table_selected.html
f898359756d186cc4c0c68361000a414 *help/tables,musica-method.html
f898359756d186cc4c0c68361000a414 *help/tables,musica_result-method.html
f898359756d186cc4c0c68361000a414 *help/tables.html
21e0ac6096500a6b278f1d5254edf860 *help/umap,musica_result-method.html
21e0ac6096500a6b278f1d5254edf860 *help/umap.html
3a8af15c72f0c7397cb7fac4c1f59a9f *help/variants,musica-method.html
3a8af15c72f0c7397cb7fac4c1f59a9f *help/variants,musica_result-method.html
3a8af15c72f0c7397cb7fac4c1f59a9f *help/variants.html
1f3621199673cf2bf23652066c533dde *html/00Index.html
b6763e6916890c631fdc3f2643803b1a *html/R.css
c496d50d15d9268c7deaf5af1695aea1 *html/add_flank_to_variants.html
e214916d273f739361fdee3ab66638f0 *html/add_variant_type.html
78ec411b29e0fdfe592b8e6f6c957ac3 *html/annotate_replication_strand.html
15da5389ba8ed2285cbd9c4699fef952 *html/annotate_transcript_strand.html
6d94ea5de4c0e64150db4e4c02897717 *html/annotate_variant_length.html
649fbace008e982acfabd9a156913913 *html/annotate_variant_type.html
e5992a785a940c7235b101ac1c52959c *html/auto_predict_grid.html
a8d884bbf9d4a6d0631085194ae35a95 *html/auto_subset_sigs.html
186e1ec0324eb5526911154f92ae2e2e *html/build_custom_table.html
552c54a25351a3dcda2f7210ef7dea9c *html/build_standard_table.html
9fe7626e38dfc0eed68990a11a3b82ce *html/built_tables.html
0d9d555be7a81798e8d93c9ce2be43be *html/cluster_exposure.html
53013225ac3c3d28421ccdddf4473218 *html/combine_count_tables.html
54c06886d9acd85a74cfadd44951ee46 *html/combine_predict_grid.html
58e09f65c1eeebc381c747a664f0daed *html/compare_cosmic_v2.html
de0ad5ebca279968c690ad99d801cd36 *html/compare_cosmic_v3.html
c1b8f9d0b8956f24096db99126314ddc *html/compare_results.html
7bca5b3b14a4a6fb8ccf87fe90db0678 *html/cosmic_v2_sigs.html
33564ed819a038dbe9af5f07f6d99863 *html/cosmic_v2_subtype_map.html
f1ea96f48673703c14ed2ec0ad446032 *html/cosmic_v3_dbs_sigs.html
fa0bbdecd0ea98ec506f9eea9d9cdd78 *html/cosmic_v3_indel_sigs.html
85130d2f4b49830880776a0e34de70b9 *html/cosmic_v3_sbs_sigs.html
dee2af2cc7263d2169726196b4901981 *html/cosmic_v3_sbs_sigs_exome.html
101245aa619e314d73454653199f20ed *html/count_table-class.html
ad8041d88b2ff2c968272acf6068d7b4 *html/create_dbs78_table.html
cd97c69da95bf88206ee6a559cb5b029 *html/create_musica.html
fd5adf12d8f597f6bcbe79a0abd4f6d8 *html/create_sbs192_table.html
16bf7fe3d652a8b3b143e820c8467166 *html/create_sbs96_table.html
ea1903333704630d715effe9b8976b6e *html/create_umap.html
f84fb0050676d5e0e4d905a10f12dc36 *html/dbs_musica.html
bfaf60a13ccde89448c15164d214991d *html/discover_signatures.html
707b34348cff9471e17bce1fb874805b *html/dot-jsd.html
3612d5f805df8cad9e741e0d8ac02589 *html/drop_annotation.html
a6fee3b8a42fb7baedd91084c4b0dfec *html/exposure_differential_analysis.html
27ca467200498d5cfb29b47a1e0bad51 *html/exposures.html
cbf7fe90177ae672353e700c259f0f82 *html/extract_count_tables.html
fc6f63ba02afd67904d1f9f747ba72f6 *html/extract_variants.html
4203fa1f839e59029c5198d08f8948af *html/extract_variants_from_maf.html
5d6993be1b657e61596b8e7127e3410c *html/extract_variants_from_maf_file.html
d70a07b51eb8b682b2e3c8a6afa12926 *html/extract_variants_from_matrix.html
824e7db779066c8514f32862805a82a9 *html/extract_variants_from_vcf.html
2335b799dfe8417756cb4aa14eab0187 *html/extract_variants_from_vcf_file.html
9b805daf2a2a5f201fac8e2c080ba4ee *html/generate_result_grid.html
efa07661bb927ae6acbf3a46a7b101ec *html/get_musica.html
7ae8fca981e3a3d82a98da9fb09832d1 *html/indel_musica.html
dcec0ba7db0bc563a02f4d8c9ffb15b9 *html/k_select.html
a3c0dd473e628ff9ee4e51a6ebecef26 *html/musica-class.html
c3fb0e8a29d9b99d15f5e83d45012fa1 *html/musica.html
2beccb25442eac47510300edba4fc3e2 *html/musica_annot.html
680bfa3ff33494116cdfcd2d4cd78005 *html/musica_result-class.html
9195e29f27f9e7e76e918e49872ec436 *html/musica_result_grid-class.html
6c9b956ff60c0fbda67a1ca7c88ab998 *html/musica_sbs96.html
88af04de196246082e31aa7b597afbe9 *html/musica_sbs96_tiny.html
0188bfc16f0d7542d1278da59ee9b287 *html/name_signatures.html
cbb2ef39aac642149d55fbcc25f30a1f *html/pipe.html
58bf2d0dc9856096f717bf70b524de6c *html/plot_cluster.html
6701a552b0de3aed3e69e931824c8902 *html/plot_differential_analysis.html
46167fced960fc3a36a1e4caf4f002ee *html/plot_exposures.html
4a60b31d88c0542ad3c9ec207f34c71a *html/plot_heatmap.html
dc257ec53c8dbf7eca72d46e8794204f *html/plot_sample_counts.html
bcd3642d4484296ab424ec7aae4218a2 *html/plot_sample_reconstruction_error.html
1cf15615085dddef76b9aa4a356f7b78 *html/plot_signatures.html
7d95dc1f1148734f950b38b73fd81a99 *html/plot_umap.html
0cb594daa06af7280b73998175ac18e5 *html/predict_exposure.html
b95e5f0c2442647aa8232291ca81df00 *html/rc.html
9e7c588faf3ff1dc3aea908a3a2cc7cd *html/rep_range.html
224ebef1377e76a7f69487328fb21cc3 *html/res.html
bbd0d59771c32b9cb9b51cbb91879ada *html/res_annot.html
35d1322667eaa0b04cb54a5d03d3034f *html/samp_annot.html
1d72368e109f39a1a540baba41830d61 *html/sample_names.html
27709985fe6c3573c0598e2b24b130a3 *html/select_genome.html
2ac2041439cdcea9a08da318a47b817a *html/signatures.html
cd58c00a8f2f819f138f2ef1145b9123 *html/subset_musica_by_annotation.html
d3be5639f9d0fe7ad5a7a0c6bccea7c2 *html/subset_musica_by_counts.html
688ec74be7e2c560aca81589681e6fc8 *html/subset_variant_by_type.html
0717b0fe3ba40837a635b88635e1778f *html/subset_variants_by_samples.html
3731014a26844564171b19a7090cc8d8 *html/table_96.html
b648379db2de96db4f02181b4d674a06 *html/table_selected.html
d92686a84adbf681c645267544d316c0 *html/tables.html
e7788b46eed2f7094b58d976a482526c *html/umap.html
4c1d8c9a259be8df7f827f5d1526e62a *html/variants.html
0a78fc13c5130c01ecfa508da9b8f217 *script/example_data.R
